Optimal primer design using the novel primer design program: MSPprimer provides accurate methylation analysis of the ATM promoter

@article{Brandes2007OptimalPD,
  title={Optimal primer design using the novel primer design program: MSPprimer provides accurate methylation analysis of the ATM promoter},
  author={Johann Christoph Brandes and Hetty E. Carraway and James G. Herman},
  journal={Oncogene},
  year={2007},
  volume={26},
  pages={6229-6237}
}
Methylation-specific polymerase chain reaction (PCR) (MSP) is frequently used to study gene silencing by promoter hypermethylation. However, non-specific primer design can lead to false-positive detection of methylation. We present a novel, web-based algorithm for the design of primers for bisulfite-PCRs (MSP, sequencing, COBRA and multiplex-MSP), allowing the determination of a specificity score, which is based on the thermodynamic characteristics of the primer 3′-end. PCR amplification with… CONTINUE READING
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